Mercurial > repos > pjbriggs > trimmomatic
view trimmomatic.sh @ 1:a2e6088d1165 draft
Uploaded latest version to check tool tests.
author | pjbriggs |
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date | Thu, 19 Mar 2015 06:13:35 -0400 |
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#!/bin/sh # # Shell wrapper to run Trimmomatic jar file as a Galaxy tool echo Arguments: for i in $@ ; do echo "*" $i done java $@ 2>&1 | tee trimmomatic.log status=$? echo "Exit status: $status" # Check for successful completion if [ -z "$(tail -1 trimmomatic.log | grep "Completed successfully")" ] ; then echo "Trimmomatic did not finish successfully" >&2 exit 1 fi exit $status ## #